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Diffusive molecular dynamics is a novel model for materials with atomistic resolution that can reach diffusive time scales. The main ideas of diffusive molecular dynamics are to first minimize an approximate variational Gaussian free energy…

Numerical Analysis · Mathematics 2015-06-09 Gideon Simpson , Mitchell Luskin , David J. Srolovitz

Typical generative diffusion models rely on a Gaussian diffusion process for training the backward transformations, which can then be used to generate samples from Gaussian noise. However, real world data often takes place in discrete-state…

Machine Learning · Computer Science 2023-05-19 Javier E Santos , Zachary R. Fox , Nicholas Lubbers , Yen Ting Lin

Since its foundations, more than one hundred years ago, the field of structural biology has strived to understand and analyze the properties of molecules and their interactions by studying the structure that they take in 3D space. However,…

Biomolecules · Quantitative Biology 2023-02-27 Gabriele Corso

Discrete diffusion models have recently shown significant progress in modeling complex data, such as natural languages and DNA sequences. However, unlike diffusion models for continuous data, which can generate high-quality samples in just…

Machine Learning · Computer Science 2025-03-20 Anji Liu , Oliver Broadrick , Mathias Niepert , Guy Van den Broeck

The moving mesh PDE (MMPDE) method for variational mesh generation and adaptation is studied theoretically at the discrete level, in particular the nonsingularity of the obtained meshes. Meshing functionals are discretized geometrically and…

Numerical Analysis · Mathematics 2018-04-20 Weizhang Huang , Lennard Kamenski

We present a new particle-based (discrete element) numerical method for the simulation of granular dynamics, with application to motions of particles on small solar system body and planetary surfaces. The method employs the parallel N-body…

Earth and Planetary Astrophysics · Physics 2013-06-12 Derek C. Richardson , Kevin J. Walsh , Naomi Murdoch , Patrick Michel

Using a coarse molecular-dynamics (CMD) approach with an appropriate choice of coarse variable (order parameter), we map the underlying effective free-energy landscape for the melting of a crystalline solid. Implementation of this approach…

Materials Science · Physics 2009-11-11 Miguel A. Amat , Ioannis G. Kevrekidis , Dimitrios Maroudas

Recently, the existence of so-called granular bubbles and droplets has been demonstrated experimentally. Granular bubbles and droplets are clusters of particles that respectively rise and sink if submerged in an aerated and vibrated bed of…

Soft Condensed Matter · Physics 2022-08-10 Jens P. Metzger , Louis Girardin , Nicholas A. Conzelmann , Christoph R. Müller

We analyse how dark matter (DM) can be produced in the early universe, working in the framework of a hidden sector charged under a U(1)' gauge symmetry and interacting with the Standard Model through kinetic mixing. Depending on the masses…

High Energy Physics - Phenomenology · Physics 2019-11-27 Thomas Hambye , Michel H. G. Tytgat , Jérôme Vandecasteele , Laurent Vanderheyden

Granular media such as sand and sugar are ubiquitous in nature and industry but are less well understood than fluids or solids. We consider the behavior of rapid granular flows where the transfer of momenta by collisions dominates. The…

Soft Condensed Matter · Physics 2009-09-29 Harry L. Swinney , E. C. Rericha

We investigate Turing instability and pattern formation in two-dimensional domains for two reaction-diffusion models, obtained as diffusive limits of kinetic equations for mixtures of monatomic and polyatomic gases. The first model is of…

Mathematical Physics · Physics 2026-02-23 Stefano Boccelli , Giorgio Martalò , Romina Travaglini

Based on the notion of a construction process consisting of the stepwise addition of particles to the pure fluid, a discrete model for the apparent viscosity as well as for the maximum packing fraction of polydisperse suspensions of…

Fluid Dynamics · Physics 2014-02-28 Aaron Dörr , Amsini Sadiki , Amirfarhang Mehdizadeh

Understanding the structural evolution of granular systems is a long-standing problem. A recently proposed theory for such dynamics in two dimensions predicts that steady states of very dense systems satisfy detailed-balance. We analyse…

Soft Condensed Matter · Physics 2023-08-16 Alex D. C. Myhill , Raphael Blumenfeld

When thin films are grown on a substrate by chemical vapor deposition, the evolution of the first deposited layers may be described, on mesoscopic scales, by dynamical models of the reaction-diffusion type. For monoatomic layers, such…

Mesoscale and Nanoscale Physics · Physics 2015-06-16 Daniel Walgraef

The Gaussian diffusion model, initially designed for image generation, has recently been adapted for 3D point cloud generation. However, these adaptations have not fully considered the intrinsic geometric characteristics of 3D shapes,…

Graphics · Computer Science 2024-08-01 Dengsheng Chen , Jie Hu , Xiaoming Wei , Enhua Wu

Convection-diffusion-reaction equations are a class of second-order partial differential equations widely used to model phenomena involving the change of concentration/population of one or more substances/species distributed in space.…

Numerical Analysis · Mathematics 2024-10-16 Rasha Al Jahdali , David C. Del Rey Fernandez , Lisandro Dalcin , Matteo Parsani

The path to understanding star formation processes begins with the study of the formation of molecular clouds. The outskirts of these clouds are characterized by low column densities that allow the penetration of ultraviolet radiation,…

Astrophysics of Galaxies · Physics 2021-02-24 L. Beitia-Antero , A. I. Gómez de Castro , J. C. Vallejo

This study introduces a novel point-wise diffusion model that processes spatio-temporal points independently to efficiently predict complex physical systems with shape variations. This methodological contribution lies in applying forward…

Computational Physics · Physics 2025-08-05 Jiyong Kim , Sunwoong Yang , Namwoo Kang

This paper deals with the vibration of granular materials due to cyclic external excitation. It highlights the effect of the acceleration on the settlement speed and proves the existence of a relationship between settlement and loss of…

The construction of coarse-grained descriptions of a system's kinetics is well established in biophysics. One prominent example is Markov state models in protein folding dynamics. In this paper, we develop a coarse-grained, discrete state…

Soft Condensed Matter · Physics 2024-12-23 Salman Fariz Navas , Sabine H. L. Klapp